If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ), 'gf_id' => 'HOM05D001089', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001089' ), 'data_identifier' => 'HOM05D001089', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001089', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '563', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A02p06620' => 'bna', 'A07p05990' => 'bna', 'A07p06000' => 'bna', 'A09p15240' => 'bna', 'A09p43760' => 'bna', 'A09p43780' => 'bna', 'A09p43830' => 'bna', 'Aa31LG1G12210' => 'aar', 'Aa31LG2G1010' => 'aar', 'Aa31LG4G18920' => 'aar', 'Aa31LG8G12340' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4282' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4014' => 'aag', 'Actinidia06627' => 'ach', 'Actinidia07093' => 'ach', 'Actinidia11251' => 'ach', 'Actinidia13199' => 'ach', 'Actinidia14578' => 'ach', 'Actinidia16459' => 'ach', 'Actinidia19150' => 'ach', 'Actinidia27678' => 'ach', 'Actinidia28366' => 'ach', 'Actinidia30993' => 'ach', 'Actinidia37274' => 'ach', 'Ah.03g142240' => 'amhyb', 'Ah.06g190850' => 'amhyb', 'Ah.15g096440' => 'amhyb', 'AL2G11280' => 'aly', 'AL3G45550' => 'aly', 'AL5G31000' => 'aly', 'AL8G36640' => 'aly', 'Aqoxy4G03116' => 'aox', 'Aqoxy6G00353' => 'aox', 'Aqoxy6G00993' => 'aox', 'Aqoxy6G00995' => 'aox', 'Aqoxy6G00996' => 'aox', 'Aqoxy7G00252' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0Z2KWF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1K4FZB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.2JU0J2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5QP756' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8KPX0U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.96G3U9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9RI59H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DVCH10' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MZH46X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NCT95F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q0FKJ2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QA5YK5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WM8SVU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YX3SGW' => 'arhy', 'AT1G63850' => 'ath', 'AT2G13690' => 'ath', 'AT2G24692' => 'ath', 'AT3G50780' => 'ath', 'AT5G60050' => 'ath', 'ATR0594G083' => 'atr', 'ATR0661G455' => 'atr', 'ATR0733G031' => 'atr', 'ATR1136G097' => 'atr', 'Atru.chr3.3758' => 'acertr', 'Atru.chr3.3759' => 'acertr', 'Atru.chr3.489' => 'acertr', 'Atru.chr9.2149' => 'acertr', 'AUR62000494' => 'cqu', 'AUR62003212' => 'cqu', 'AUR62006839' => 'cqu', 'AUR62008034' => 'cqu', 'AUR62010718' => 'cqu', 'AUR62027264' => 'cqu', 'AUR62033085' => 'cqu', 'AUR62034020' => 'cqu', 'BcaB01g00582' => 'bca', 'BcaB03g16217' => 'bca', 'BcaB05g22611' => 'bca', 'BcaB05g22612' => 'bca', 'BcaB07g31416' => 'bca', 'BcaC02g08764' => 'bca', 'BcaC04g22509' => 'bca', 'BcaC06g35996' => 'bca', 'BcaC07g39540' => 'bca', 'BolC2t07288H' => 'bol', 'BolC4t25046H' => 'bol', 'BolC5t33515H' => 'bol', 'BolC7t41328H' => 'bol', 'BolC8t50209H' => 'bol', 'BolC9t54745H' => 'bol', 'BraA02t05744Z' => 'bra', 'BraA09t37171Z' => 'bra', 'BraA09t39842Z' => 'bra', 'C02p11910' => 'bna', 'C04p34920' => 'bna', 'C07p09160' => 'bna', 'C08p25930' => 'bna', 'C09p18500' => 'bna', 'CAN.G129.52' => 'can', 'CAN.G532.12' => 'can', 'CAN.G652.10' => 'can', 'CAN.G836.10' => 'can', 'CAN.G84.14' => 'can', 'CANSAT01G0291' => 'cansat', 'CANSAT01G2678' => 'cansat', 'CANSAT21G2458' => 'cansat', 'CANSAT54G1302' => 'cansat', 'CARHR047320' => 'chi', 'CARHR104740' => 'chi', 'CARHR154120' => 'chi', 'CARHR160290' => 'chi', 'CARHR273670' => 'chi', 'Carub.0002s0100' => 'cru', 'Carub.0003s2818' => 'cru', 'Carub.0005s1713' => 'cru', 'Carub.0008s2075' => 'cru', 'Ca_10940_v3' => 'car', 'Ca_16942_v3' => 'car', 'Ca_16961_v3' => 'car', 'Ca_19217_v3' => 'car', 'Ca_22240_v3' => 'car', 'Cc01_g11940' => 'ccan', 'Cc07_g05290' => 'ccan', 'Cc07_g18410' => 'ccan', 'Cc08_g15050' => 'ccan', 'CDE02G1236' => 'cde', 'CDE04G0592' => 'cde', 'CDE04G1789' => 'cde', 'CDE04G3104' => 'cde', 'CDE06G0716' => 'cde', 'CDE06G1882' => 'cde', 'CDE07G0264' => 'cde', 'CDE08G0610' => 'cde', 'CDE12G0597' => 'cde', 'Cfa004249' => 'cfa', 'Cfa011404' => 'cfa', 'Ciclev10000740m.g' => 'ccl', 'Ciclev10019226m.g' => 'ccl', 'Ciclev10026330m.g' => 'ccl', 'Ciclev10028213m.g' => 'ccl', 'CiPaw.01G030500' => 'cil', 'CiPaw.02G014100' => 'cil', 'CiPaw.03G122500' => 'cil', 'CiPaw.03G209000' => 'cil', 'CiPaw.04G082900' => 'cil', 'CiPaw.11G132200' => 'cil', 'CiPaw.12G090600' => 'cil', 'CiPaw.13G103500' => 'cil', 'ClCG01G002490' => 'cla', 'ClCG01G015410' => 'cla', 'ClCG01G016300' => 'cla', 'COL.COLO4_18402' => 'col', 'COL.COLO4_22161' => 'col', 'COL.COLO4_34505' => 'col', 'COL.COLO4_35730' => 'col', 'Cpa.g.sc139.18' => 'cpa', 'Cpa.g.sc15.114' => 'cpa', 'Cpa.g.sc180.18' => 'cpa', 'Cpa.g.sc42.147' => 'cpa', 'CsaV3_5G002590' => 'csa', 'CsaV3_6G041630' => 'csa', 'CsaV3_6G042610' => 'csa', 'CSS0000980' => 'camsi', 'CSS0002886' => 'camsi', 'CSS0010299' => 'camsi', 'CSS0025559' => 'camsi', 'CSS0037744' => 'camsi', 'CSS0039834' => 'camsi', 'CSS0045681' => 'camsi', 'CSS0047990' => 'camsi', 'DCAR_001343' => 'dca', 'DCAR_005293' => 'dca', 'DCAR_008362' => 'dca', 'DCAR_010956' => 'dca', 'DCAR_025662' => 'dca', 'Dinv00316' => 'din', 'Dinv06074' => 'din', 'Dinv17752' => 'din', 'Dinv19340' => 'din', 'Dinv24348' => 'din', 'Dinv26787' => 'din', 'Dinv32831' => 'din', 'Dinv32832' => 'din', 'Dinv33567' => 'din', 'Dinv37615' => 'din', 'Dinv38917' => 'din', 'Dinv39935' => 'din', 'Duzib068G0756' => 'dzi', 'Duzib147G0836' => 'dzi', 'Duzib168G0905' => 'dzi', 'Duzib187G0231' => 'dzi', 'Duzib187G1565' => 'dzi', 'Duzib205G0155' => 'dzi', 'Duzib264G0668' => 'dzi', 'Duzib264G1113' => 'dzi', 'ECA232G1738' => 'eca', 'ECA233G3260' => 'eca', 'ECA246G2309' => 'eca', 'ECA248G3704' => 'eca', 'EL10Ac4g09595' => 'bvu', 'EL10Ac5g12808' => 'bvu', 'EL10Ac6g14866' => 'bvu', 'EL10Ac7g15929' => 'bvu', 'Eucgr.B02440' => 'egr', 'Eucgr.E00642' => 'egr', 'Eucgr.H00077' => 'egr', 'Eucgr.I00209' => 'egr', 'Eucgr.I02489' => 'egr', 'FAN04G1750' => 'fan', 'FAN08G0316' => 'fan', 'FAN11G2551' => 'fan', 'FAN13G2975' => 'fan', 'FAN16G1876' => 'fan', 'FAN18G1863' => 'fan', 'FAN19G0489' => 'fan', 'FAN19G2559' => 'fan', 'FAN21G1118' => 'fan', 'FAN23G0235' => 'fan', 'FAN23G1164' => 'fan', 'FAN23G1912' => 'fan', 'FAN26G1131' => 'fan', 'FAN26G3362' => 'fan', 'FAN28G0961' => 'fan', 'FAN28G1888' => 'fan', 'FvH4_1g14330' => 'fve', 'FvH4_1g24270' => 'fve', 'FvH4_3g34280' => 'fve', 'FvH4_5g02930' => 'fve', 'Glyma.01G180000' => 'gma', 'Glyma.02G060102' => 'gma', 'Glyma.02G060202' => 'gma', 'Glyma.04G213200' => 'gma', 'Glyma.05G191400' => 'gma', 'Glyma.05G210100' => 'gma', 'Glyma.06G153000' => 'gma', 'Glyma.08G016800' => 'gma', 'Glyma.11G062200' => 'gma', 'Glyma.11G147526' => 'gma', 'Glyma.12G074200' => 'gma', 'Glyma.16G143000' => 'gma', 'Gohir.A02G162500' => 'ghi', 'Gohir.A03G020100' => 'ghi', 'Gohir.A03G036000' => 'ghi', 'Gohir.A05G385500' => 'ghi', 'Gohir.A07G093900' => 'ghi', 'Gohir.A08G115533' => 'ghi', 'Gohir.A09G191700' => 'ghi', 'Gohir.A12G231300' => 'ghi', 'Gohir.D02G164800' => 'ghi', 'Gohir.D03G018000' => 'ghi', 'Gohir.D03G132301' => 'ghi', 'Gohir.D03G148800' => 'ghi', 'Gohir.D04G022700' => 'ghi', 'Gohir.D07G098500' => 'ghi', 'Gohir.D08G136200' => 'ghi', 'Gohir.D09G186100' => 'ghi', 'Gohir.D12G232400' => 'ghi', 'Gorai.001G105900' => 'gra', 'Gorai.003G018200' => 'gra', 'Gorai.003G139200' => 'gra', 'Gorai.003G156100' => 'gra', 'Gorai.004G139400' => 'gra', 'Gorai.005G184700' => 'gra', 'Gorai.006G208800' => 'gra', 'Gorai.008G248700' => 'gra', 'Gorai.012G034300' => 'gra', 'GSVIVG01019044001' => 'vvi', 'GSVIVG01019396001' => 'vvi', 'GSVIVG01025081001' => 'vvi', 'GSVIVG01026493001' => 'vvi', 'HanXRQChr02g0035601' => 'han', 'HanXRQChr04g0103251' => 'han', 'HanXRQChr09g0265131' => 'han', 'HanXRQChr13g0393811' => 'han', 'HanXRQChr17g0533301' => 'han', 'Haze_08818' => 'cav', 'Haze_15150' => 'cav', 'Haze_23975' => 'cav', 'Haze_25224' => 'cav', 'Hma1.2p1_0261F.1_g104810' => 'hma', 'Hma1.2p1_0476F.1_g160890' => 'hma', 'Hma1.2p1_0746F.1_g212210' => 'hma', 'Hma1.2p1_0746F.1_g212220' => 'hma', 'Hma1.2p1_2050F.1_g312545' => 'hma', 'Hma1.2p1_2615F.1_g325460' => 'hma', 'Hma1.2p1_3120F.1_g332860' => 'hma', 'HPP92_000895' => 'vpl', 'HPP92_006585' => 'vpl', 'HPP92_009284' => 'vpl', 'HPP92_022211' => 'vpl', 'HPP92_022227' => 'vpl', 'HPP92_028466' => 'vpl', 'Hund07258' => 'sun', 'Hund11449' => 'sun', 'Hund14128' => 'sun', 'Hund14865' => 'sun', 'Hund16570' => 'sun', 'Hund18950' => 'sun', 'Lalb_Chr01g0003931' => 'lal', 'Lalb_Chr03g0026981' => 'lal', 'Lalb_Chr05g0227381' => 'lal', 'Lalb_Chr09g0320901' => 'lal', 'Lalb_Chr12g0203151' => 'lal', 'Lalb_Chr13g0296591' => 'lal', 'Lalb_Chr16g0378031' => 'lal', 'Lalb_Chr16g0378281' => 'lal', 'Lalb_Chr16g0390211' => 'lal', 'Lj1A179T61' => 'lonja', 'Lj1g0012030' => 'lja', 'Lj2A605T66' => 'lonja', 'Lj2C1044G7' => 'lonja', 'Lj2C181T8' => 'lonja', 'Lj2g0026204' => 'lja', 'Lj3g0012039' => 'lja', 'Lj4C134G13' => 'lonja', 'Lj4g0016712' => 'lja', 'Lj4g0018122' => 'lja', 'Lj8A217T74' => 'lonja', 'Lsat_1_v5_gn_3_7001' => 'lsa', 'Lsat_1_v5_gn_4_176201' => 'lsa', 'Lsat_1_v5_gn_5_166320' => 'lsa', 'Lsat_1_v5_gn_6_5120' => 'lsa', 'Manes.01G058800' => 'mes', 'Manes.11G138100' => 'mes', 'Manes.12G154700' => 'mes', 'Manes.13G083500' => 'mes', 'Manes.13G134400' => 'mes', 'Mapoly0092s0047' => 'mpo', 'MBI03_g35248_MAGBIO' => 'mbi', 'MBI08_g29121_MAGBIO' => 'mbi', 'MBI11_g24783_MAGBIO' => 'mbi', 'MBI16_g10974_MAGBIO' => 'mbi', 'MBI16_g13156_MAGBIO' => 'mbi', 'MD02G1156900' => 'mdo', 'MD03G1106900' => 'mdo', 'MD06G1088400' => 'mdo', 'MD11G1119600' => 'mdo', 'MD14G1109500' => 'mdo', 'MD15G1271400' => 'mdo', 'MD15G1343000' => 'mdo', 'Medtr3g096160' => 'mtr', 'Medtr4g061670' => 'mtr', 'Medtr8g078495' => 'mtr', 'Medtr8g078710' => 'mtr', 'Medtr8g098805' => 'mtr', 'MELO3C005697.2' => 'cme', 'MELO3C007501.2' => 'cme', 'MELO3C008057.2' => 'cme', 'Migut.D02161' => 'egut', 'Migut.E01194' => 'egut', 'Migut.H00726' => 'egut', 'Migut.K00849' => 'egut', 'MSTRG.11965' => 'ama', 'MSTRG.15410' => 'ama', 'MSTRG.18615' => 'ama', 'MSTRG.21162' => 'ama', 'MSTRG.23450' => 'ama', 'MSTRG.25628' => 'ama', 'MSTRG.2658' => 'ama', 'MSTRG.3400' => 'ama', 'Nitab4.5_0000483g0030' => 'nta', 'Nitab4.5_0000856g0030' => 'nta', 'Nitab4.5_0002282g0020' => 'nta', 'Nitab4.5_0004015g0020' => 'nta', 'Nitab4.5_0004932g0030' => 'nta', 'Nitab4.5_0006540g0030' => 'nta', 'Nitab4.5_0012178g0010' => 'nta', 'Nitab4.5_0025746g0010' => 'nta', 'Nn1g01602' => 'nnu', 'Nn1g05125' => 'nnu', 'Nn1g06255' => 'nnu', 'Nn2g12938' => 'nnu', 'Nn3g21111' => 'nnu', 'Nn5g28573' => 'nnu', 'Nn5g29472' => 'nnu', 'Oeu031429.1' => 'oeu', 'Oeu032906.1' => 'oeu', 'Oeu037815.1' => 'oeu', 'Oeu043833.1' => 'oeu', 'Oeu047693.2' => 'oeu', 'Oeu058511.1' => 'oeu', 'Os03g0769400' => 'osa', 'Os04g0278000' => 'osa', 'Os04g0579700' => 'osa', 'Os07g0123500' => 'osa', 'Os07g0259700' => 'osa', 'Os12g0188500' => 'osa', 'Os12g0596600' => 'osa', 'Peaxi162Scf00074g01923' => 'pax', 'Peaxi162Scf00535g00416' => 'pax', 'Peaxi162Scf00589g00417' => 'pax', 'Peaxi162Scf00616g00625' => 'pax', 'PGR042G1653' => 'pgr', 'PGR079G0003' => 'pgr', 'PGR102G1310' => 'pgr', 'PGR119G0584' => 'pgr', 'PGR119G1161' => 'pgr', 'PGSC0003DMG400004753' => 'stu', 'PGSC0003DMG400010040' => 'stu', 'PGSC0003DMG400012330' => 'stu', 'PGSC0003DMG400025360' => 'stu', 'PGSC0003DMG400028664' => 'stu', 'Phvul.002G024700' => 'pvu', 'Phvul.002G271800' => 'pvu', 'Phvul.002G291900' => 'pvu', 'Phvul.003G250400' => 'pvu', 'Phvul.009G150200' => 'pvu', 'Phvul.011G070200' => 'pvu', 'Potri.001G100900' => 'ptr', 'Potri.001G233900' => 'ptr', 'Potri.003G131000' => 'ptr', 'Potri.005G058700' => 'ptr', 'Potri.005G129700' => 'ptr', 'Potri.007G032800' => 'ptr', 'Potri.007G109300' => 'ptr', 'Pp3c13_7700' => 'ppa', 'Pp3c23_15300' => 'ppa', 'Pp3c3_4210' => 'ppa', 'Prupe.5G104400' => 'ppe', 'Prupe.6G089700' => 'ppe', 'Prupe.7G146800' => 'ppe', 'Psat0s145g0080' => 'psa', 'Psat2g013200' => 'psa', 'Psat4g090280' => 'psa', 'Psat6g243440' => 'psa', 'Psat7g032120' => 'psa', 'Psat7g221480' => 'psa', 'PSO170G5142' => 'pso', 'PSO210G2945' => 'pso', 'PSO242G0034' => 'pso', 'PSO302G0293' => 'pso', 'PSO339G3269' => 'pso', 'PSO339G6124' => 'pso', 'PSO339G6305' => 'pso', 'PSO384G3588' => 'pso', 'PSO478G3271' => 'pso', 'PSO541G3549' => 'pso', 'PSO541G4920' => 'pso', 'PSO675G2547' => 'pso', 'PSO675G5406' => 'pso', 'PSO699G0053' => 'pso', 'PSO782G3621' => 'pso', 'QL01p035399' => 'qlo', 'QL06p028744' => 'qlo', 'QL06p044492' => 'qlo', 'QL12p032299' => 'qlo', 'RcHm_v2.0_Chr2g0103001' => 'rch', 'RcHm_v2.0_Chr2g0120761' => 'rch', 'RcHm_v2.0_Chr5g0046721' => 'rch', 'RcHm_v2.0_Chr5g0061841' => 'rch', 'RcHm_v2.0_Chr5g0061851' => 'rch', 'RcHm_v2.0_Chr7g0196961' => 'rch', 'Rhsim02G0234400' => 'rsi', 'Rhsim08G0003000' => 'rsi', 'Rhsim08G0110300' => 'rsi', 'Rhsim13G0089800' => 'rsi', 'RhsimUnG0139800' => 'rsi', 'Sabra01G0075800' => 'sbr', 'Sabra03G0093200' => 'sbr', 'Sabra05G0050400' => 'sbr', 'Sabra07G0028700' => 'sbr', 'Sabra07G0089400' => 'sbr', 'Sabra16G0140200' => 'sbr', 'SalBow1G1293' => 'sbo', 'SalBow3G2663' => 'sbo', 'Sc01g0009730' => 'sci', 'Sc03g0001060' => 'sci', 'Sc12g0001920' => 'sci', 'Sc22g0002300' => 'sci', 'Sc22g0005420' => 'sci', 'Sed0004822' => 'sed', 'Sed0007635' => 'sed', 'Sed0015585' => 'sed', 'Sed0027312' => 'sed', 'SEGI_08343' => 'sgi', 'SEGI_08764' => 'sgi', 'SEGI_10950' => 'sgi', 'SEGI_20246' => 'sgi', 'SGA_v2.0_scaffold173G39155' => 'sas', 'SGA_v2.0_scaffold194G40762' => 'sas', 'SGA_v2.0_scaffold289G47265' => 'sas', 'SGA_v2.0_scaffold370G50128' => 'sas', 'SGA_v2.0_scaffold62G21535' => 'sas', 'SHI13727' => 'shi', 'SMO118G0094' => 'smo', 'SMO358G0362' => 'smo', 'Solyc02g089950.2' => 'sly', 'Solyc08g081380.3' => 'sly', 'Solyc11g005950.2' => 'sly', 'Solyc11g072720.2' => 'sly', 'Solyc11g072900.1' => 'sly', 'Sopen02g034640' => 'spe', 'Sopen08g029700' => 'spe', 'Sopen11g001890' => 'spe', 'Sopen11g030390' => 'spe', 'Sopen11g030560' => 'spe', 'Sp2g00840' => 'spa', 'Sp3g27080' => 'spa', 'Sp5g11450' => 'spa', 'Sp6g21710' => 'spa', 'TAR369G0848' => 'tar', 'TAR374G0066' => 'tar', 'TAR375G0390' => 'tar', 'TAR376G0328' => 'tar', 'TAR381G1408' => 'tar', 'TAR610G0004' => 'tar', 'TAR625G0745' => 'tar', 'TAR628G1685' => 'tar', 'TAR629G0928' => 'tar', 'TAR633G0250' => 'tar', 'THA.LOC104799473' => 'tha', 'THA.LOC104807158' => 'tha', 'THA.LOC104825249' => 'tha', 'THA.LOC104826822' => 'tha', 'Thecc.01G044000' => 'tca', 'Thecc.01G131000' => 'tca', 'Thecc.03G012100' => 'tca', 'Thecc.03G283700' => 'tca', 'Thecc.09G334200' => 'tca', 'Thhalv10002519m.g' => 'esa', 'Thhalv10003115m.g' => 'esa', 'Thhalv10010286m.g' => 'esa', 'Thhalv10013333m.g' => 'esa', 'Thhalv10022633m.g' => 'esa', 'Thhalv10023392m.g' => 'esa', 'TPR.G12874' => 'tpr', 'TPR.G2965' => 'tpr', 'TPR.G31556' => 'tpr', 'TPR.G8173' => 'tpr', 'TWI09G0563' => 'twi', 'TWI73G0853' => 'twi', 'TWI75G1424' => 'twi', 'TWI79G0009' => 'twi', 'TWI79G0855' => 'twi', 'TWI81G0643' => 'twi', 'unitig_37.g12243' => 'ugi', 'unitig_736.g22254' => 'ugi', 'unitig_736.g22423' => 'ugi', 'unitig_736.g22682' => 'ugi', 'unitig_899.g14693' => 'ugi', 'vmacro03140' => 'vma', 'vmacro11395' => 'vma', 'vmacro17875' => 'vma', 'vmacro18665' => 'vma', 'VMungo0251G0650' => 'vmu', 'VMungo0251G1012' => 'vmu', 'VMungo0251G2310' => 'vmu', 'VMungo0331G0205' => 'vmu', 'VMungo0540G0617' => 'vmu', 'VMungo1127G2307' => 'vmu', 'VMungo1215G2910' => 'vmu', 'VMungo1309G0318' => 'vmu', 'VMungo1383G3685' => 'vmu', 'Zm00001eb030800' => 'zma', 'Zm00001eb030840' => 'zma', 'Zm00001eb058760' => 'zma', 'Zm00001eb069060' => 'zma', 'Zm00001eb097130' => 'zma', 'Zm00001eb117900' => 'zma', 'Zm00001eb138550' => 'zma', 'Zm00001eb144490' => 'zma', 'Zm00001eb211020' => 'zma', 'Zm00001eb304710' => 'zma', 'Zm00001eb310160' => 'zma', 'Zm00001eb310170' => 'zma', 'Zm00001eb428440' => 'zma' ) $gf_id = 'HOM05D001089' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001089' ) $data_identifier = 'HOM05D001089' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aar' => (int) 4, 'aag' => (int) 2, 'ach' => (int) 11, 'amhyb' => (int) 3, 'aly' => (int) 4, 'aox' => (int) 6, 'arhy' => (int) 14, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 4, 'cqu' => (int) 8, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 3, 'can' => (int) 5, 'cansat' => (int) 4, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 9, 'cfa' => (int) 2, 'ccl' => (int) 4, 'cil' => (int) 8, 'cla' => (int) 3, 'col' => (int) 4, 'cpa' => (int) 4, 'csa' => (int) 3, 'camsi' => (int) 8, 'dca' => (int) 5, 'din' => (int) 12, 'dzi' => (int) 8, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 4, 'han' => (int) 5, 'cav' => (int) 4, 'hma' => (int) 7, 'vpl' => (int) 6, 'sun' => (int) 6, 'lal' => (int) 9, 'lonja' => (int) 6, 'lja' => (int) 5, 'lsa' => (int) 4, 'mes' => (int) 5, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 7, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 4, 'ama' => (int) 8, 'nta' => (int) 8, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 7, 'pax' => (int) 4, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 7, 'ppa' => (int) 3, 'ppe' => (int) 3, 'psa' => (int) 6, 'pso' => (int) 15, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 2, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 2, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 10, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 4, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 4, 'vmu' => (int) 9, 'zma' => (int) 13 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb428440' $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